Computational protocol: Proximal and distal regulation of the HYAL1 gene cluster by the estrogen receptor α in breast cancer cells

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Protocol publication

[…] The ChIP-seq data were generated as follow: after trimming [], the sequenced reads were aligned against the human reference genome hg19 using BWA [], then peaks were called by MACS [] using default parameters. Aligned tags were converted to Bedgraph files by HOMER [] and UCSC, and visualized with IGV []. ERα ChIP-seq data were downloaded from [], while H3K27ac ChIP-seq was generated as described []. […]

Pipeline specifications

Software tools BWA, HOMER, IGV
Application ChIP-seq analysis
Organisms Homo sapiens
Diseases Breast Neoplasms, Neoplasms, Hereditary Breast and Ovarian Cancer Syndrome
Chemicals Estrogens